This distribution has been tested as part of the cpan-testers
effort to test as many new uploads to CPAN as possible. See
http://testers.cpan.org/
Please cc any replies to cpan-testers@perl.org to keep other
test volunteers informed and to prevent any duplicate effort.
--
Dear EASR,
This is a computer-generated error report created automatically by
CPANPLUS, version 0.83_02. Testers personal comments may appear
at the end of this report.
Thank you for uploading your work to CPAN. However, it appears that
there were some problems testing your distribution.
TEST RESULTS:
Below is the error stack from stage 'make test':
[MSG] [Fri Nov 2 01:31:04 2007] Trying to get
'http://www.cpan.org/authors/id/E/EA/EASR/onto-perl/onto-perl-1.0.tar.gz'
[MSG] [Fri Nov 2 01:31:07 2007] Trying to get
'http://www.cpan.org/authors/id/E/EA/EASR/onto-perl/CHECKSUMS'
[MSG] [Fri Nov 2 01:31:08 2007] Checksum matches for 'onto-perl-1.0.tar.gz'
[MSG] [Fri Nov 2 01:31:09 2007] Extracted 'onto-perl-1.0/'
[MSG] [Fri Nov 2 01:31:09 2007] Extracted 'onto-perl-1.0/t/'
[MSG] [Fri Nov 2 01:31:09 2007] Extracted 'onto-perl-1.0/t/data/'
[MSG] [Fri Nov 2 01:31:09 2007] Extracted 'onto-perl-1.0/t/data/ulo_cco.obo'
[MSG] [Fri Nov 2 01:31:09 2007] Extracted
'onto-perl-1.0/t/data/cco_g_dummy.ids'
[MSG] [Fri Nov 2 01:31:09 2007] Extracted
'onto-perl-1.0/t/data/test_orthomcl.dat'
[MSG] [Fri Nov 2 01:31:09 2007] Extracted 'onto-perl-1.0/t/data/pre_cco.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/nodes_dummy.dmp'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_i_At.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/out_I_A_thaliana.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/goa_assoc.txt'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_b.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_g.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_o.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/goa_assoc_filt.txt'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_u.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/Ath_cc_up.map'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/arath_small-05.xml'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_b_sce.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/out_cco.obo.old'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/names_dummy.dmp'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/test_ulo_cco2.owl'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/Ath_up.map'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/arath_small-07.xml'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/out_omcl.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/cco_id_term.map'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/pre_cco_core.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_b_hsa.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_b_ath.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/up_test.txt'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/alpha.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_t.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted
'onto-perl-1.0/t/data/fake_ulo_cco.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/out_cco_up.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/out_cco.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/header.obo'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/data/cco_i.ids'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/SynonymSet.t'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/GoaAssociation.t'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/OBOParser.t'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/Ontology.t'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/NCBIParser.t'
[MSG] [Fri Nov 2 01:31:10 2007] Extracted 'onto-perl-1.0/t/OWLParser.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/TermSet.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/CCO_ID_Set.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/GoaAssociationSet.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/Def.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/CCO_ID.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/Synonym.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/RelationshipType.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/SynonymTypeDef.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/UniProtParser.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/Set.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/IntActParser.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/NewIntActParser.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/OrthoMCLParser.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/CCO_ID_Term_Map.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/GoaParser.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/Dbxref.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/SynonymTypeDefSet.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/IDspace.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/DbxrefSet.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/Term.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/Relationship.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/t/Ontolome.t'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/CCO/'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/CCO/Util/'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/CCO/Util/DbxrefSet.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted
'onto-perl-1.0/CCO/Util/ObjectIdSet.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/CCO/Util/Set.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted
'onto-perl-1.0/CCO/Util/XMLIntactParser.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted
'onto-perl-1.0/CCO/Util/CCO_ID_Set.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted
'onto-perl-1.0/CCO/Util/CCO_ID_Term_Map.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted
'onto-perl-1.0/CCO/Util/SynonymTypeDefSet.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/CCO/Util/CCO_ID.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted 'onto-perl-1.0/CCO/Util/Ontolome.pm'
[MSG] [Fri Nov 2 01:31:11 2007] Extracted
'onto-perl-1.0/CCO/Util/SynonymSet.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Util/TermSet.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Util/GoaAssociationSet.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Util/ObjectSet.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Core/'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Core/GoaAssociation.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Core/Synonym.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Core/Def.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Core/Interaction.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Core/Relationship.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Core/SynonymTypeDef.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Core/Term.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Core/Dbxref.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Core/IDspace.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Core/RelationshipType.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Core/Ontology.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Core/Interactor.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/CCO/Parser/'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/UniProtParser.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/NCBIParser.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/InteractionManager.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/OrthoMCLParser.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/IntActParser.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/OBOParser.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/OWLParser.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/GoaParser.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/CCO/Parser/NewIntActParser.pm'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/Changes'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/MANIFEST'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/scripts/'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/scripts/term_id_vs_term_def.pl'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/scripts/names.xsl'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/scripts/owl2obo.pl'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/scripts/obo2cco.pl'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/scripts/obsolete_term_id_vs_name_in_go.pl'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/scripts/xml2html.xsl'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/scripts/obsolete_term_id_vs_def_in_go.pl'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted 'onto-perl-1.0/scripts/obo2xml.pl'
[MSG] [Fri Nov 2 01:31:12 2007] Extracted
'onto-perl-1.0/scripts/term_id_vs_term_name.pl'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto-perl-1.0/scripts/obo2owl.pl'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto-perl-1.0/scripts/go2owl.pl'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted
'onto-perl-1.0/scripts/get_ancestor_terms.pl'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto-perl-1.0/LICENSE'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto-perl-1.0/README'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto-perl-1.0/META.yml'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto-perl-1.0/onto-perl.pod'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto-perl-1.0/INSTALL'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto-perl-1.0/Makefile.PL'
[MSG] [Fri Nov 2 01:31:13 2007] Extracted 'onto::perl' to
'/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0'
[MSG] [Fri Nov 2 01:31:14 2007]
XML::XPath is missing. This module is only required in order to
perform parsing operations with IntAct-XML files. However, this
module is not required for using onto-perl. If you do not intend
to use IntAct XML files, then you may continue, and install
XML::XPath in the future.
SWISS::Entry is missing. This module is only required in order to
perform parsing operations with UniProt files. However, this
module is not required for using onto-perl. If you do not intend
to use UniProt files, then you may continue, and install
SWISS::Entry in the future.
XML::Parser is missing. This module is only required in order to
perform parsing operations with XML files (obo2owl). However, this
module is not fully required for using onto-perl. If you do not intend
to convert your files to OWL, then you may continue, and install
XML::Parser in the future.
Checking if your kit is complete...
Looks good
Writing Makefile for CCO
[MSG] [Fri Nov 2 01:31:14 2007] DEFAULT 'filter_prereqs' HANDLER RETURNING
'sub return value'
[MSG] [Fri Nov 2 01:31:24 2007] cp CCO/Util/DbxrefSet.pm
blib/lib/CCO/Util/DbxrefSet.pm
cp CCO/Core/GoaAssociation.pm blib/lib/CCO/Core/GoaAssociation.pm
cp CCO/Parser/UniProtParser.pm blib/lib/CCO/Parser/UniProtParser.pm
cp CCO/Core/SynonymTypeDef.pm blib/lib/CCO/Core/SynonymTypeDef.pm
cp CCO/Core/Def.pm blib/lib/CCO/Core/Def.pm
cp CCO/Core/Synonym.pm blib/lib/CCO/Core/Synonym.pm
cp CCO/Util/ObjectIdSet.pm blib/lib/CCO/Util/ObjectIdSet.pm
cp CCO/Core/Term.pm blib/lib/CCO/Core/Term.pm
cp CCO/Parser/NCBIParser.pm blib/lib/CCO/Parser/NCBIParser.pm
cp CCO/Util/CCO_ID.pm blib/lib/CCO/Util/CCO_ID.pm
cp CCO/Core/Interaction.pm blib/lib/CCO/Core/Interaction.pm
cp CCO/Util/Ontolome.pm blib/lib/CCO/Util/Ontolome.pm
cp CCO/Util/SynonymSet.pm blib/lib/CCO/Util/SynonymSet.pm
cp CCO/Util/Set.pm blib/lib/CCO/Util/Set.pm
cp CCO/Util/XMLIntactParser.pm blib/lib/CCO/Util/XMLIntactParser.pm
cp CCO/Parser/OBOParser.pm blib/lib/CCO/Parser/OBOParser.pm
cp CCO/Util/TermSet.pm blib/lib/CCO/Util/TermSet.pm
cp CCO/Util/GoaAssociationSet.pm blib/lib/CCO/Util/GoaAssociationSet.pm
cp CCO/Util/CCO_ID_Set.pm blib/lib/CCO/Util/CCO_ID_Set.pm
cp CCO/Parser/InteractionManager.pm blib/lib/CCO/Parser/InteractionManager.pm
cp CCO/Util/CCO_ID_Term_Map.pm blib/lib/CCO/Util/CCO_ID_Term_Map.pm
cp CCO/Util/SynonymTypeDefSet.pm blib/lib/CCO/Util/SynonymTypeDefSet.pm
cp onto-perl.pod blib/lib/onto-perl.pod
cp CCO/Parser/OrthoMCLParser.pm blib/lib/CCO/Parser/OrthoMCLParser.pm
cp CCO/Parser/OWLParser.pm blib/lib/CCO/Parser/OWLParser.pm
cp CCO/Core/Dbxref.pm blib/lib/CCO/Core/Dbxref.pm
cp CCO/Core/IDspace.pm blib/lib/CCO/Core/IDspace.pm
cp CCO/Parser/IntActParser.pm blib/lib/CCO/Parser/IntActParser.pm
cp CCO/Core/Relationship.pm blib/lib/CCO/Core/Relationship.pm
cp CCO/Core/RelationshipType.pm blib/lib/CCO/Core/RelationshipType.pm
cp CCO/Util/ObjectSet.pm blib/lib/CCO/Util/ObjectSet.pm
cp CCO/Core/Ontology.pm blib/lib/CCO/Core/Ontology.pm
cp CCO/Parser/GoaParser.pm blib/lib/CCO/Parser/GoaParser.pm
cp CCO/Core/Interactor.pm blib/lib/CCO/Core/Interactor.pm
cp CCO/Parser/NewIntActParser.pm blib/lib/CCO/Parser/NewIntActParser.pm
cp scripts/term_id_vs_term_name.pl blib/script/term_id_vs_term_name.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/term_id_vs_term_name.pl
cp scripts/obsolete_term_id_vs_name_in_go.pl
blib/script/obsolete_term_id_vs_name_in_go.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/obsolete_term_id_vs_name_in_go.pl
cp scripts/owl2obo.pl blib/script/owl2obo.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/owl2obo.pl
cp scripts/go2owl.pl blib/script/go2owl.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/go2owl.pl
cp scripts/obo2xml.pl blib/script/obo2xml.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/obo2xml.pl
cp scripts/obsolete_term_id_vs_def_in_go.pl
blib/script/obsolete_term_id_vs_def_in_go.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/obsolete_term_id_vs_def_in_go.pl
cp scripts/obo2owl.pl blib/script/obo2owl.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/obo2owl.pl
cp scripts/term_id_vs_term_def.pl blib/script/term_id_vs_term_def.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/term_id_vs_term_def.pl
cp scripts/obo2cco.pl blib/script/obo2cco.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/obo2cco.pl
cp scripts/get_ancestor_terms.pl blib/script/get_ancestor_terms.pl
/home/cpan/perl588/bin/perl "-MExtUtils::MY" -e "MY->fixin(shift)"
blib/script/get_ancestor_terms.pl
Manifying blib/man1/obsolete_term_id_vs_name_in_go.pl.1
Manifying blib/man1/obsolete_term_id_vs_def_in_go.pl.1
Manifying blib/man1/obo2owl.pl.1
Manifying blib/man1/owl2obo.pl.1
Manifying blib/man1/go2owl.pl.1
Manifying blib/man1/get_ancestor_terms.pl.1
Manifying blib/man3/CCO::Core::GoaAssociation.3
Manifying blib/man3/CCO::Util::DbxrefSet.3
Manifying blib/man3/CCO::Parser::UniProtParser.3
Manifying blib/man3/CCO::Core::SynonymTypeDef.3
Manifying blib/man3/CCO::Core::Def.3
Manifying blib/man3/CCO::Core::Synonym.3
Manifying blib/man3/CCO::Util::ObjectIdSet.3
Manifying blib/man3/CCO::Core::Term.3
Manifying blib/man3/CCO::Parser::NCBIParser.3
Manifying blib/man3/CCO::Util::CCO_ID.3
Manifying blib/man3/CCO::Core::Interaction.3
Manifying blib/man3/CCO::Util::Ontolome.3
Manifying blib/man3/CCO::Util::SynonymSet.3
Manifying blib/man3/CCO::Util::Set.3
Manifying blib/man3/CCO::Util::XMLIntactParser.3
Manifying blib/man3/CCO::Parser::OBOParser.3
Manifying blib/man3/CCO::Util::TermSet.3
Manifying blib/man3/CCO::Util::GoaAssociationSet.3
Manifying blib/man3/CCO::Util::CCO_ID_Set.3
Manifying blib/man3/CCO::Parser::InteractionManager.3
Manifying blib/man3/CCO::Util::CCO_ID_Term_Map.3
Manifying blib/man3/CCO::Util::SynonymTypeDefSet.3
Manifying blib/man3/onto-perl.3
Manifying blib/man3/CCO::Parser::OrthoMCLParser.3
Manifying blib/man3/CCO::Parser::OWLParser.3
Manifying blib/man3/CCO::Core::Dbxref.3
Manifying blib/man3/CCO::Core::IDspace.3
Manifying blib/man3/CCO::Parser::IntActParser.3
Manifying blib/man3/CCO::Core::Relationship.3
Manifying blib/man3/CCO::Core::RelationshipType.3
Manifying blib/man3/CCO::Util::ObjectSet.3
Manifying blib/man3/CCO::Parser::GoaParser.3
Manifying blib/man3/CCO::Core::Ontology.3
Manifying blib/man3/CCO::Parser::NewIntActParser.3
Manifying blib/man3/CCO::Core::Interactor.3
[ERROR] [Fri Nov 2 01:31:45 2007] MAKE TEST failed: PERL_DL_NONLAZY=1
/home/cpan/perl588/bin/perl "-MExtUtils::Command::MM" "-e" "test_harness(0,
'blib/lib', 'blib/arch')" t/*.t
t/CCO_ID...............ok
t/CCO_ID_Set...........ok
t/CCO_ID_Term_Map......ok
t/Dbxref...............ok
t/DbxrefSet............ok
t/Def..................ok
t/GoaAssociation.......ok
t/GoaAssociationSet....ok
t/GoaParser............ok
t/IDspace..............ok
t/IntActParser.........Can't locate XML/Simple.pm in @INC (@INC contains:
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/arch
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib
/home/cpan/perl588/lib/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/5.8.8
/home/cpan/perl588/lib/site_perl/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/site_perl/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/site_perl/5.8.8
/home/cpan/perl588/lib/site_perl/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/site_perl/5.8.8 /home/cpan/perl588/lib/site_perl .
/home/cpan/perl588/lib/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/5.8.8
/home/cpan/perl588/lib/site_perl/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/site_perl/5.8.8 /home/cpan/perl588/lib/site_perl .) at
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib/CCO/Util/XMLIntactParser.pm
line 12.
BEGIN failed--compilation aborted at
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib/CCO/Util/XMLIntactParser.pm
line 12.
Compilation failed in require at t/IntActParser.t line 15.
BEGIN failed--compilation aborted at t/IntActParser.t line 15.
dubious
Test returned status 2 (wstat 512, 0x200)
DIED. FAILED tests 1-7
Failed 7/7 tests, 0.00% okay
t/NCBIParser...........ok
t/NewIntActParser......ok
7/8 skipped: various reasons
t/OBOParser............ok
t/Ontology.............ok
t/Ontolome.............ok
t/OrthoMCLParser.......ok
t/OWLParser............Can't locate XML/Parser.pm in @INC (@INC contains:
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/arch
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib
/home/cpan/perl588/lib/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/5.8.8
/home/cpan/perl588/lib/site_perl/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/site_perl/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/site_perl/5.8.8
/home/cpan/perl588/lib/site_perl/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/site_perl/5.8.8 /home/cpan/perl588/lib/site_perl .
/home/cpan/perl588/lib/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/5.8.8
/home/cpan/perl588/lib/site_perl/5.8.8/i386-netbsd-thread-multi-64int
/home/cpan/perl588/lib/site_perl/5.8.8 /home/cpan/perl588/lib/site_perl .) at
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib/CCO/Parser/OWLParser.pm
line 17.
BEGIN failed--compilation aborted at
/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib/CCO/Parser/OWLParser.pm
line 17.
Compilation failed in require at t/OWLParser.t line 14.
BEGIN failed--compilation aborted at t/OWLParser.t line 14.
dubious
Test returned status 2 (wstat 512, 0x200)
DIED. FAILED tests 1-4
Failed 4/4 tests, 0.00% okay
t/Relationship.........ok
t/RelationshipType.....ok
t/Set..................ok
t/Synonym..............ok
t/SynonymSet...........ok
t/SynonymTypeDef.......ok
t/SynonymTypeDefSet....ok
t/Term.................ok
t/TermSet..............ok
t/UniProtParser........ok
12/12 skipped: various reasons
Failed Test Stat Wstat Total Fail List of Failed
-------------------------------------------------------------------------------
t/IntActParser.t 2 512 7 14 1-7
t/OWLParser.t 2 512 4 8 1-4
19 subtests skipped.
Failed 2/28 test scripts. 11/733 subtests failed.
Files=28, Tests=733, 21 wallclock secs (10.99 cusr + 8.33 csys = 19.32 CPU)
Failed 2/28 test programs. 11/733 subtests failed.
*** Error code 25
Stop.
make: stopped in /home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0
[MSG] [Fri Nov 2 01:31:45 2007] DEFAULT 'proceed_on_test_failure' HANDLER
RETURNING 'sub return value'
MISSING PREREQUISITES:
It was observed that the test suite seem to fail without these modules:
XML::Simple
XML::Parser
As such, adding the prerequisite module(s) to 'PREREQ_PM' in your
Makefile.PL should solve this problem. For example:
WriteMakefile(
AUTHOR => 'EASR ([EMAIL PROTECTED])',
... # other information
PREREQ_PM => {
'XML::Simple' => '0', # or a minimum working version
'XML::Parser' => '0', # or a minimum working version
}
);
If you are interested in making a more flexible Makefile.PL that can
probe for missing dependencies and install them, ExtUtils::AutoInstall
at <http://search.cpan.org/dist/ExtUtils-AutoInstall/> may be
worth a look.
Thanks! :-)
******************************** NOTE ********************************
The comments above are created mechanically, possibly without manual
checking by the sender. As there are many people performing automatic
tests on each upload to CPAN, it is likely that you will receive
identical messages about the same problem.
If you believe that the message is mistaken, please reply to the first
one with correction and/or additional informations, and do not take
it personally. We appreciate your patience. :)
**********************************************************************
Additional comments:
This report was machine-generated by CPAN::YACSmoke 0.0307.
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
PATH =
/home/cpan/bin:/bin:/sbin:/usr/bin:/usr/sbin:/usr/X11R6/bin:/usr/pkg/bin:/usr/pkg/sbin:/usr/games:/usr/local/bin:/usr/local/sbin
PERL5LIB =
:/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/lib:/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib/arch:/home/cpan/perl588/.cpanplus/5.8.8/build/onto-perl-1.0/blib
PERL5_CPANPLUS_IS_RUNNING = 23025
PERL5_CPANPLUS_IS_VERSION = 0.83_02
PERL_MM_USE_DEFAULT = 1
SHELL = /bin/ksh
TERM = screen
Perl special variables (and OS-specific diagnostics, for MSWin32):
Perl: $^X = /home/cpan/perl588/bin/perl
UID: $< = 1000
EUID: $> = 1000
GID: $( = 100 100
EGID: $) = 100 100
-------------------------------
--
Summary of my perl5 (revision 5 version 8 subversion 8) configuration:
Platform:
osname=netbsd, osvers=4.0_rc3, archname=i386-netbsd-thread-multi-64int
uname='netbsd diafol.bingosnet.co.uk 4.0_rc3 netbsd 4.0_rc3 (generic) #0:
tue oct 16 01:14:06 pdt 2007 [EMAIL
PROTECTED]:homebuildsabnetbsd-4-0-rc3i386200710160011z-objhomebuildsabnetbsd-4-0-rc3srcsysarchi386compilegeneric
i386 '
config_args=''
hint=recommended, useposix=true, d_sigaction=define
usethreads=define use5005threads=undef useithreads=define
usemultiplicity=define
useperlio=define d_sfio=undef uselargefiles=define usesocks=undef
use64bitint=define use64bitall=undef uselongdouble=undef
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-fno-strict-aliasing -pipe -Wdeclaration-after-statement
-I/usr/pkg/include',
optimize='-O',
cppflags='-fno-strict-aliasing -pipe -Wdeclaration-after-statement
-I/usr/pkg/include'
ccversion='', gccversion='4.1.2 20061021 prerelease (NetBSD nb3 20061125)',
gccosandvers=''
intsize=4, longsize=4, ptrsize=4, doublesize=8, byteorder=12345678
d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=12
ivtype='long long', ivsize=8, nvtype='double', nvsize=8, Off_t='off_t',
lseeksize=8
alignbytes=4, prototype=define
Linker and Libraries:
ld='cc', ldflags =' -Wl,-rpath,/usr/pkg/lib -Wl,-rpath,/usr/local/lib
-L/usr/pkg/lib'
libpth=/usr/pkg/lib /lib /usr/lib
libs=-lm -lcrypt -lutil -lc -lposix -lpthread
perllibs=-lm -lcrypt -lutil -lc -lposix -lpthread
libc=/lib/libc.so, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version=''
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E '
cccdlflags='-DPIC -fPIC ', lddlflags='--whole-archive -shared
-L/usr/pkg/lib'
